Induction of Olfaction and Cancer-Related Genes in Mice Fed a High-Fat Diet as Assessed through the Mode-of-Action by Network Identification Analysis

PLoS ONE

Volumn 8, Issue 3, 2013, Pages

  Choi, Youngshim ^a   Hur, Cheol Goo ^b   Park, Taesun ^a  

^a Yonsei University   (South Korea)

^b Korea Research Institute of Bioscience and Biotechnology (KRIBB)   (South Korea)

Author keywords

[No Author keywords available]

Indexed keywords

DNA;

ANIMAL EXPERIMENT; ANIMAL MODEL; ANIMAL TISSUE; ARTICLE; ATP8B3 GENE; CONTROLLED STUDY; DISEASE ACTIVITY; DNA SEQUENCE; GENE; GENE CLUSTER; GENE EXPRESSION PROFILING; GENE FUNCTION; GENE IDENTIFICATION; GENETIC ALGORITHM; GENETIC ANALYSIS; GENETIC MARKER; GLI2 GENE; GUCY2C GENE; INTRAABDOMINAL FAT; LIPID DIET; MALE; MICROARRAY ANALYSIS; MODE OF ACTION BY NETWORK IDENTIFICATION ANALYSIS; MOLECULAR PATHOLOGY; MOUSE; NONHUMAN; NUCLEOTIDE SEQUENCE; OBESITY; OLFACTOR RECEPTOR GENE; ONCOGENE; SEQUENCE ANALYSIS; SIGNAL TRANSDUCTION; SUBCUTANEOUS FAT; TMEM46 GENE; UNINDEXED SEQUENCE;

ADIPOSE TISSUE; ANIMALS; DIETARY FATS; GENE EXPRESSION REGULATION; MALE; MICE; OBESITY; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PROTO-ONCOGENE PROTEINS; SMELL; TIME FACTORS;

MUS;

EID: 84875446687     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0056610     Document Type: Article

References (58)

1. Jain N, Thatte J, Braciale T, Ley K, O'Connell M, et al. (2003) Local-pooled-error test for identifying differentially expressed genes with a small number of replicated microarrays. Bioinformatics 19: 1945-1951.
2. Storey JD, Tibshirani R, (2003) Statistical methods for identifying differentially expressed genes in DNA microarrays. Methods in molecular biology 224: 149-157.
3. Eisen MB, Spellman PT, Brown PO, Botstein D, (1998) Cluster analysis and display of genome-wide expression patterns. Proceedings of the National Academy of Sciences of the United States of America 95: 14863-14868.
4. di Bernardo D, Thompson MJ, Gardner TS, Chobot SE, Eastwood EL, et al. (2005) Chemogenomic profiling on a genome-wide scale using reverse-engineered gene networks. Nature biotechnology 23: 377-383.
5. Kerr MK, Martin M, Churchill GA, (2000) Analysis of variance for gene expression microarray data. Journal of computational biology: a journal of computational molecular cell biology 7: 819-837.
6. Cobb JP, Mindrinos MN, Miller-Graziano C, Calvano SE, Baker HV, et al. (2005) Application of genome-wide expression analysis to human health and disease. Proceedings of the National Academy of Sciences of the United States of America 102: 4801-4806.
7. Hsu KL, Pilobello KT, Mahal LK, (2006) Analyzing the dynamic bacterial glycome with a lectin microarray approach. Nature chemical biology 2: 153-157.
8. McAdams HH, Shapiro L, (2003) A bacterial cell-cycle regulatory network operating in time and space. Science 301: 1874-1877.
9. Soukas A, Cohen P, Socci ND, Friedman JM, (2000) Leptin-specific patterns of gene expression in white adipose tissue. Genes & development 14: 963-980.
10. Xing H, Gardner TS, (2006) The mode-of-action by network identification (MNI) algorithm: a network biology approach for molecular target identification. Nature protocols 1: 2551-2554.
11. Zhang X, Rogers M, Tian H, Zou DJ, Liu J, et al. (2004) High-throughput microarray detection of olfactory receptor gene expression in the mouse. Proceedings of the National Academy of Sciences of the United States of America 101: 14168-14173.
12. Gilad Y, Lancet D, (2003) Population differences in the human functional olfactory repertoire. Molecular biology and evolution 20: 307-314.
13. Palouzier-Paulignan B, Lacroix MC, Aime P, Baly C, Caillol M, et al. (2012) Olfaction Under Metabolic Influences. Chem Senses.
14. Richardson BE, Vander Woude EA, Sudan R, Thompson JS, Leopold DA, (2004) Altered olfactory acuity in the morbidly obese. Obes Surg 14: 967-969.
15. Richardson BE, Vanderwoude EA, Sudan R, Leopold DA, Thompson JS, (2012) Gastric bypass does not influence olfactory function in obese patients. Obes Surg 22: 283-286.
16. Simchen U, Koebnick C, Hoyer S, Issanchou S, Zunft HJ, (2006) Odour and taste sensitivity is associated with body weight and extent of misreporting of body weight. Eur J Clin Nutr 60: 698-705.
17. Parmentier M, Libert F, Schurmans S, Schiffmann S, Lefort A, et al. (1992) Expression of members of the putative olfactory receptor gene family in mammalian germ cells. Nature 355: 453-455.
18. Mombaerts P, (1999) Molecular biology of odorant receptors in vertebrates. Annual review of neuroscience 22: 487-509.
19. Young JM, Trask BJ, (2002) The sense of smell: genomics of vertebrate odorant receptors. Human molecular genetics 11: 1153-1160.
20. Wang Z, Li V, Chan GC, Phan T, Nudelman AS, et al. (2009) Adult type 3 adenylyl cyclase-deficient mice are obese. PloS one 4: e6979.
21. Kelley JR, Fraser MM, Hubbard JM, Watson DK, Cole DJ, (2003) CaSm antisense gene therapy: a novel approach for the treatment of pancreatic cancer. Anticancer research 23: 2007-2013.
22. Fraser MM, Watson PM, Fraig MM, Kelley JR, Nelson PS, et al. (2005) CaSm-mediated cellular transformation is associated with altered gene expression and messenger RNA stability. Cancer research 65: 6228-6236.
23. Ostrakhovitch EA, Li SS, (2010) NIP1/DUOXA1 expression in epithelial breast cancer cells: regulation of cell adhesion and actin dynamics. Breast cancer research and treatment 119: 773-786.
24. Ahmad N, Kumar R, (2011) Steroid hormone receptors in cancer development: a target for cancer therapeutics. Cancer letters 300: 1-9.
25. Naderi A, Teschendorff AE, Beigel J, Cariati M, Ellis IO, et al. (2007) BEX2 is overexpressed in a subset of primary breast cancers and mediates nerve growth factor/nuclear factor-kappaB inhibition of apoptosis in breast cancer cell lines. Cancer research 67: 6725-6736.
26. Naderi A, Liu J, Bennett IC, (2010) BEX2 regulates mitochondrial apoptosis and G1 cell cycle in breast cancer. International journal of cancer Journal international du cancer 126: 1596-1610.
27. Vos MD, Ellis CA, Elam C, Ulku AS, Taylor BJ, et al. (2003) RASSF2 is a novel K-Ras-specific effector and potential tumor suppressor. The Journal of biological chemistry 278: 28045-28051.
28. Oesterreich S, (2003) Scaffold attachment factors SAFB1 and SAFB2: Innocent bystanders or critical players in breast tumorigenesis? Journal of cellular biochemistry 90: 653-661.
29. Ruggeri BA, Klurfeld DM, Kritchevsky D, Furlanetto RW, (1989) Caloric restriction and 7,12-dimethylbenz(a) anthracene-induced mammary tumor growth in rats: alterations in circulating insulin, insulin-like growth factors I and II, and epidermal growth factor. Cancer research 49: 4130-4134.
30. Sorensen CS, Melixetian M, Klein DK, Helin K, (2010) NEK11: linking CHK1 and CDC25A in DNA damage checkpoint signaling. Cell cycle 9: 450-455.
31. Mejia A, Schulz S, Hyslop T, Weinberg DS, Waldman SA, (2009) GUCY2C reverse transcriptase PCR to stage pN0 colorectal cancer patients. Expert review of molecular diagnostics 9: 777-785.
32. Rho JH, Qin S, Wang JY, Roehrl MH, (2008) Proteomic expression analysis of surgical human colorectal cancer tissues: up-regulation of PSB7, PRDX1, and SRP9 and hypoxic adaptation in cancer. Journal of proteome research 7: 2959-2972.
33. Chen PC, Kuraguchi M, Velasquez J, Wang Y, Yang K, et al. (2008) Novel roles for MLH3 deficiency and TLE6-like amplification in DNA mismatch repair-deficient gastrointestinal tumorigenesis and progression. PLoS genetics 4: e1000092.
34. Guo FJ, Zhang WJ, Li YL, Liu Y, Li YH, et al. (2010) Expression and functional characterization of platelet-derived growth factor receptor-like gene. World journal of gastroenterology: WJG 16: 1465-1472.
35. Ahmed RL, Schmitz KH, Anderson KE, Rosamond WD, Folsom AR, (2006) The metabolic syndrome and risk of incident colorectal cancer. Cancer 107: 28-36.
36. Pischon T, Lahmann PH, Boeing H, Friedenreich C, Norat T, et al. (2006) Body size and risk of colon and rectal cancer in the European Prospective Investigation Into Cancer and Nutrition (EPIC). Journal of the National Cancer Institute 98: 920-931.
37. Saydah SH, Platz EA, Rifai N, Pollak MN, Brancati FL, et al. (2003) Association of markers of insulin and glucose control with subsequent colorectal cancer risk. Cancer epidemiology, biomarkers & prevention: a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology 12: 412-418.
38. Ma J, Giovannucci E, Pollak M, Leavitt A, Tao Y, et al. (2004) A prospective study of plasma C-peptide and colorectal cancer risk in men. Journal of the National Cancer Institute 96: 546-553.
39. Hu C, Zhang R, Wang C, Ma X, Wang J, et al. (2011) Lack of association between genetic polymorphisms within DUSP12 - ATF6 locus and glucose metabolism related traits in a Chinese population. BMC medical genetics 12: 3.
40. Munoz-Alonso MJ, Guillemain G, Kassis N, Girard J, Burnol AF, et al. (2000) A novel cytosolic dual specificity phosphatase, interacting with glucokinase, increases glucose phosphorylation rate. The Journal of biological chemistry 275: 32406-32412.
41. Chen Q, Gupta S, Pernis AB, (2009) Regulation of TLR4-mediated signaling by IBP/Def6, a novel activator of Rho GTPases. Journal of leukocyte biology 85: 539-543.
42. Arbibe L, Mira JP, Teusch N, Kline L, Guha M, et al. (2000) Toll-like receptor 2-mediated NF-kappa B activation requires a Rac1-dependent pathway. Nature immunology 1: 533-540.
43. Chen LY, Zuraw BL, Liu FT, Huang S, Pan ZK, (2002) IL-1 receptor-associated kinase and low molecular weight GTPase RhoA signal molecules are required for bacterial lipopolysaccharide-induced cytokine gene transcription. Journal of immunology 169: 3934-3939.
44. Jaeschke A, Rincon M, Doran B, Reilly J, Neuberg D, et al. (2005) Disruption of the Jnk2 (Mapk9) gene reduces destructive insulitis and diabetes in a mouse model of type I diabetes. Proceedings of the National Academy of Sciences of the United States of America 102: 6931-6935.
45. Singh R, Wang Y, Xiang Y, Tanaka KE, Gaarde WA, et al. (2009) Differential effects of JNK1 and JNK2 inhibition on murine steatohepatitis and insulin resistance. Hepatology 49: 87-96.
46. Topper JN, Cai J, Qiu Y, Anderson KR, Xu YY, et al. (1997) Vascular MADs: two novel MAD-related genes selectively inducible by flow in human vascular endothelium. Proceedings of the National Academy of Sciences of the United States of America 94: 9314-9319.
47. Ignotz RA, Massague J, (1985) Type beta transforming growth factor controls the adipogenic differentiation of 3T3 fibroblasts. Proceedings of the National Academy of Sciences of the United States of America 82: 8530-8534.
48. Clouthier DE, Comerford SA, Hammer RE, (1997) Hepatic fibrosis, glomerulosclerosis, and a lipodystrophy-like syndrome in PEPCK-TGF-beta1 transgenic mice. The Journal of clinical investigation 100: 2697-2713.
49. Lyon RC, Johnston SM, Panopoulos A, Alzeer S, McGarvie G, et al. (2009) Enzymes involved in the metabolism of gamma-hydroxybutyrate in SH-SY5Y cells: identification of an iron-dependent alcohol dehydrogenase ADHFe1. Chemico-biological interactions 178: 283-287.
50. Kim JY, Tillison KS, Zhou S, Lee JH, Smas CM, (2007) Differentiation-dependent expression of Adhfe1 in adipogenesis. Archives of biochemistry and biophysics 464: 100-111.
51. Xu J, McNearney TA, Chen JD, (2011) Impaired postprandial releases/syntheses of ghrelin and PYY (3-36) and blunted responses to exogenous ghrelin and PYY (3-36) in a rodent model of diet-induced obesity. Journal of gastroenterology and hepatology 26: 700-705.
52. Batterham RL, Cohen MA, Ellis SM, Le Roux CW, Withers DJ, et al. (2003) Inhibition of food intake in obese subjects by peptide YY3-36. The New England journal of medicine 349: 941-948.
53. le Roux CW, Batterham RL, Aylwin SJ, Patterson M, Borg CM, et al. (2006) Attenuated peptide YY release in obese subjects is associated with reduced satiety. Endocrinology 147: 3-8.
54. Gloyn AL, Desai M, Clark A, Levy JC, Holman RR, et al. (2002) Human calcium/calmodulin-dependent protein kinase II gamma gene (CAMK2G): cloning, genomic structure and detection of variants in subjects with type II diabetes. Diabetologia 45: 580-583.
55. Easom RA, (1999) CaM kinase II: a protein kinase with extraordinary talents germane to insulin exocytosis. Diabetes 48: 675-684.
56. Dawe HR, Smith UM, Cullinane AR, Gerrelli D, Cox P, et al. (2007) The Meckel-Gruber Syndrome proteins MKS1 and meckelin interact and are required for primary cilium formation. Human molecular genetics 16: 173-186.
57. Seeman T, Seemanova E, Nuernberg G, Nuernberg P, Janssen S, et al. (2010) Polycystic kidney and hepatic disease with mental retardation is nephronophthisis 11 caused by MKS3/TMEM67 mutations. Pediatric nephrology 25: 2375-2376.
58. Barbuio R, Milanski M, Bertolo MB, Saad MJ, Velloso LA, (2007) Infliximab reverses steatosis and improves insulin signal transduction in liver of rats fed a high-fat diet. The Journal of endocrinology 194: 539-550.